An R package and associated scripts for visualisation splicing quantitative trait loci (sQTLs).
If you use sQTLviztools in your work, please cite the following two papers:
- https://www.nature.com/articles/s41588-018-0238-1
- https://www.nature.com/articles/s41467-019-08912-9
- clone the sqtlviztools repo
git clone https://github.com/jackhump/sqtlviztools.git
- install the R package and any dependencies
in R:
install.packages("remotes")
remotes::install_github("jackhump/sQTLviztools")
I picked a SNP / intron cluster pair at random from the ROSMAP shiny app - https://rajlab.shinyapps.io/sQTLviz_ROSMAP/
In the examples folder there is a toy version of each file you'll need to visualise sQTLs.
- Create the example Rdata file
on the command line:
cd sqtlviztools/
Rscript prepare_example.R
- Run the example Shiny app
cd shiny/
Rscript shiny/run_shiny.R
Please raise an issue on this github if you can't get the example app working.